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Query: PF00142.13; NIFH1_RHOCA/5-277; 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family, from PfamA26U

Results of FFAS03 search in PfamA26U
Master-slave alignment does not show gaps in the query sequence, use ali links to display alignment between query and templates.
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# Score Template Links and tools%idFirst RQIAFYGKGGIGKSTTSQNTLAALVEMGQKILIVGCDPKADSTRLILNTKLQDTVLHLAAEVGSVEDLEVEDVVKIGYKGIKCTEAGGPEPGVGCAGRGVITAINFLEENGAYDDVDYVSYDVLGDVVCGGFAMPIRENKAQEIYIVMSGEMMALYAANNIAKGILKYANSGGVRLGGLICNERKTDRELELAEALAAKLGCKMIHFVPRNNVVQHAELRRETVIQYDPTCSQAQEYRELARKIHENSGKGVIPTPITMEELEEMLMDFGIMQLast
1 -116.000PF00142.13; NIFH1_RHOCA/5-277; 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family  ali  100  1RQIAFYGKGGIGKSTTSQNTLAALVEMGQKILIVGCDPKADSTRLILNTKLQDTVLHLAAEVGSVEDLEVEDVVKIGYKGIKCTEAGGPEPGVGCAGRGVITAINFLEENGAYDDVDYVSYDVLGDVVCGGFAMPIRENKAQEIYIVMSGEMMALYAANNIAKGILKYANSGGVRLGGLICNERKTDRELELAEALAAKLGCKMIHFVPRNNVVQHAELRRETVIQYDPTCSQAQEYRELARKIHENSGKGVIPTPITMEELEEMLMDFGIMQ 273
2 -49.200PF01656.18; P72976_SYNY3/5-262; CobQ/CobB/MinD/ParA nucleotide binding domain  ali follow..  13  1..ISTNMKGGVGKTTLTVNLATCLAKYQKRVLVLDLDSQISATLSLMAPHDNAIQPNPYSKLDIFDIIEICQIEGLELIPGDIELYNPNFETVWNKFEGTLIKEMLAPVLEEYDFVILDCAPGYNLLTRSGIA------ASDFYLLPARPEPLSVVGMQLLERRIEKLKES-NINLIGVVFGGLMSRYYNQVMRRVQTDFTPGQLQSIPMDVNVAK......................................................... 258
3 -46.200PF06564.7; A6TFD7_KLEP7/1-243; YhjQ protein  ali follow..  11  2AILGLQGRGGTGVTSITAALAWALQLLGESVLAIDASPDNMLRFFFNTDIHHQDWARALLDGRDWRDAGLRYTQHIDLLPFGQLSAGERENVDQLQPTLGAIAEAVQQLQGQYRWLLLDLPAGYSPLTRELLTL------CDRSLVVVHPDANSHIRLHQ----------QPLPANGDILINRVGSQLQEDLYQLWLESQPRILPVTIHRDEAMAECLAAKQPLGEYRQDSLAAEEVLTLANWCLIHYSAGRAA................... 243
4 -39.800PF09140.6; A5EKW2_BRASB/13-276; ATPase MipZ  ali follow..  13  1HVVVLNEKGGSGKSTTALHIAVALLKAGQRVATIDLDSRQQSFTHYINNR----------SAWARRTGLHLELPTHYCIKLGQTLQIDENE----KAEFQQFMEAVCSVEHAFDFIVVDTPGNDSYLMRLAHSM------ADTLVTPINDSFLDFDVLGTVDPATYAVVRRKRRQVDGAMTDSRNKQLVADGLKELSLRLGFRAIEFFPRGLTALDDIDEATLGTRPNLGHVTAEEVTSLLRQL............................. 260
5 -32.700PF07015.6; Q1M9M0_RHIL3/1-231; VirC1 protein  ali follow..  11  2QLVTCSFKGGAGKTTALMGLCSALAADGKTIALFEADENRPLSKWKENATRRNAWDPLCEIFITDELPLLEVAY-------------------------------EEAAGRGFDYCLVETHHGSSELNNTVIAS------SNLLLIPTMLTPLDADEALATFRYIIELLIGENLAIPAILRQRVPANRLNSSERLISEMLTLPLATPMHERDAFAAMKDRGMLHLNLRN-AAANSSMRLTLRNLEAAMEDLRSLGKFVSSTVEH......... 231
6 -23.400PF02374.10; ASNA_HUMAN/37-340; Anion-transporting ATPase  ali follow..  10  2KWIFVGGKGGVGKTTCSCSLAVQLSKGRESVLIISTDPAHNISDAFDQKFSDNLFAMEIDPSLGVAELPDEFFEEDNMLSMGKKMMQEAMSAFGIDEAMSYAEVMRLVKGMNFSVVVFDTAPTGHTLRL--LNFPTIVERGLGRLMQIKNQ------ISPFISQMCNMLGLGDMNADQLA---SKLEETLPVIRSVSEQFKDPICVCIAEFLSLYETERLIQELAKCKIDTHNIIVNQLVFPDPEKPCKMCEARHKIQAKYLDQMEDLYE... 275
7 -15.700PF13614.1; Q28JF6_JANSC/100-250; AAA domain  ali follow..  11  1KRLAVTSPTSCGKTTMALNLALGFTQPDIRVMLIELDLRRPSIAKVLGLQLNNDITEVLRGDVSFHEHAFRFGKNVTISAARNV---SKDPTSILLGPTTHQILEDIEATYDPDILMFDLPPLLVSDDTRAFL-----KEVDCGMMIARAEV......................................................................................................................... 146
8 -14.000PF13500.1; B1XHZ8_SYNP2/6-216; AAA domain  ali follow..  12  1QHIVVASEPYSGKSAVLLGLVQSLKQKGISV----SKPIGTVWHDEQNGRFTRIEDDLRFLGEAFGLKETEVRSPVLFLDEATVAQRLTGQDQTDYPQKLKDDLGAIAS-------DITFIEAPKSLWEGSLFGEIAATLGAKILLVIPYH------HKLLVDSLLTIYRFLGDRLMGVVINKEALETAETQIKPFLAQRGIDVYGLVPADRILR.......................................................... 208
9 -11.600PF03205.9; Q9FLE2_ARATH/115-230; Molybdopterin guanine dinucleotide synthesis protein B  ali follow..  26  2.RVIIVGDIDSGKSTLAKMLLNWAVKDGWKPTFVDLNVGQSS....................................................................................................................................................................................................................................... 42
10 -10.700PF13479.1; Q4EAN1_9RICK/15-248; AAA domain  ali follow..  10  5.KMVIFGPYGIGKTSLLKTID-------EPTLCLDFEAGLLAVQDWKGDSTEIRTWNEARDIACLIGGPNPALKSDQAYSQRHYEH-------------SSKYKDFSSEFSKYRCIFVDSITVASRLCLLWAKMQPEAFSERSGKQDMRVAYGLLA--QEMMAWLNQFQHIRDKDI--IVGTLGQYLDDCNRPVWLPQCEGTKTASEIPGIVDE........................................................... 195
11 -10.500PF03029.12; O01426_CAEEL/6-251; Conserved hypothetical ATP binding protein  ali follow..  19  1....VIGAPGAGKSTFCAGLTDIFSQTKRPFLTINLDPANDTMA-------------YAPDVNITEMITVNDVM--------------DRLGLGPNG-ALKYCIETLGAN------------------CNWLLQKIEANHKKYLIIDCPGQLELYKSEGELWKVIRFLEKSGVRLCALHLADSLYCSDPSKFISVALSTLATMVTMEMPQVNCLSKADLFSEDGTYDLEFFSHLPDVNRLLDLLNEVPGLEKYRK---NEAICGVISDFDLVS 221
12 -9.610PF03308.11; Q9YBB4_AERPE/19-287; ArgK protein  ali follow..  19  31.VIGFTGIPGAGKSTLVSRVITGLRRRGYRVAVVAIDPTSPFSGG-----------SIMGDRLRMQEHAADPGVFIRSIPTRGIKGG--------LSMAALAMIEVFDAMG----YDKIIIETVG---VGQSEVDIINAAHTIIVVTMPGAGDDVQALKAGVMEIGDI----------YVVNKSDKPEANKTAAYLQFALEKEDI.................................................................... 198
13 -9.260PF00448.17; FTSY_HAEIN/209-410; SRP54-type protein, GTPase domain  ali follow..  17  3.VILMVGVNGVGKTTTIGKLARKFQAEGKSVMLAAGDTRAAAVEQLQVWGERNHIPVVAQSTGSDSASVIFDAMQ------SAAARNIDILIADTAGR-LQNKNNLMDELKKIVRV----------------MKKYDETAPHEIMLTLD----AGTGQNAISQA---KLFNEAVGLTGISLTKLDGTAKGGVIFAIADQFKLPI..................................................................... 176

FFAS is supported by the NIH grant R01-GM087218-01
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Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Li W, Godzik A. cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics. 2006 May 26;